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mmu_ciHsp90ab1_209
Basic information of circular RNA
PanCircBase ID:
mmu_ciHsp90ab1_209
mm39_Chr. Position ID:
chr17|45882129|45882338|-
Gene name:
Hsp90ab1
Transcript:
ENSMUST00000024739.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
209
Exon/intron sizes in nt:
209
Flanking exon/introns:
chr17:45882103-45882338
Splice length:
209
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGTGTGGCCTTTCATCCACACCGTCCTCTAATTTGTTACTGCTTAAGTTAAAATTTGTCTGTCTAGGGTATTACATATTAGGACACTTATTAGAAAAAAAGTACAAGTGGTTGGTCAGGACAGCTTTGACCCCTAGATCTCTGGACATTGAACTGATTGTTACCTTGCGCAGCAGATGGTTATACTTGGCCAAGAACCATGTTGCTGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTTGGTCAGGACAGCTTTG
59.05
AGCAGTAACAAATTAGAGGACGGT
60.02
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTTGGTCAGGACAGCTTTG
59.05
GCAGTAACAAATTAGAGGACGGTG
59.91
143
PCR template sequence:
GGTTGGTCAGGACAGCTTTGACCCCTAGATCTCTGGACATTGAACTGATTGTTACCTTGCGCAGCAGATGGTTATACTTGGCCAAGAACCATGTTGCTGAGTGTGTGGCCTTTCATCCACACCGTCCTCTAATTTGTTACTGCTTAAGTTAAAATTTGTCTGTCTAGGGTATTACATATTAGGACACTTATTAGAAAAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-320-3p(1), mmu-miR-802-5p(1), mmu-miR-344-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCATGTTGCTGAGTGTGTGGCCTTT
siRNA sets
AAAGGCCACACACTCAGCA, ACACACTCAGCAACATGGT, AAGGCCACACACTCAGCAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.892660882
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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